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Long noncoding RNA‐mediated epigenetic regulation of auxin‐related genes controls shade avoidance syndrome in Arabidopsis
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Mammarella, María Florencia, Lucero, Leandro, Hussain, Nosheen, Muñoz‐Lopez, Aitor, Huang, Ying, Ferrero, Lucia, Fernandez‐Milmanda, Guadalupe L., Manavella, Pablo, Benhamed, Moussa, Crespi, Martin, Ballare, Carlos L., Gutiérrez Marcos, José, Cubas, Pilar and Ariel, Federico (2023) Long noncoding RNA‐mediated epigenetic regulation of auxin‐related genes controls shade avoidance syndrome in Arabidopsis. The EMBO Journal, 42 (24). e113941. doi:10.15252/embj.2023113941 ISSN 0261-4189.
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Official URL: http://doi.org/10.15252/embj.2023113941
Abstract
The long noncoding RNA (lncRNA) AUXIN-REGULATED PROMOTER LOOP (APOLO) recognizes a subset of target loci across the Arabidopsis thaliana genome by forming RNA–DNA hybrids (R-loops) and modulating local three-dimensional chromatin conformation. Here, we show that APOLO regulates shade avoidance syndrome by dynamically modulating expression of key factors. In response to far-red (FR) light, expression of APOLO anti-correlates with that of its target BRANCHED1 (BRC1), a master regulator of shoot branching in Arabidopsis thaliana. APOLO deregulation results in BRC1 transcriptional repression and an increase in the number of branches. Accumulation of APOLO transcription fine-tunes the formation of a repressive chromatin loop encompassing the BRC1 promoter, which normally occurs only in leaves and in a late response to far-red light treatment in axillary buds. In addition, our data reveal that APOLO participates in leaf hyponasty, in agreement with its previously reported role in the control of auxin homeostasis through direct modulation of auxin synthesis gene YUCCA2, and auxin efflux genes PID and WAG2. We show that direct application of APOLO RNA to leaves results in a rapid increase in auxin signaling that is associated with changes in the plant response to far-red light. Collectively, our data support the view that lncRNAs coordinate shade avoidance syndrome in A. thaliana, and reveal their potential as exogenous bioactive molecules. Deploying exogenous RNAs that modulate plant–environment interactions may therefore become a new tool for sustainable agriculture.
Item Type: | Journal Article | ||||||||||||||||||
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Subjects: | Q Science > QK Botany Q Science > QP Physiology |
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Divisions: | Faculty of Science, Engineering and Medicine > Science > Life Sciences (2010- ) | ||||||||||||||||||
Library of Congress Subject Headings (LCSH): | Plants, Arabidopsis thaliana, Non-coding RNA, Nucleic acids, Plant genetic engineering, Shoots (Botany) -- Growth -- Research, Plants -- Photomorphogenesis | ||||||||||||||||||
Journal or Publication Title: | The EMBO Journal | ||||||||||||||||||
Publisher: | Nature Publishing Group | ||||||||||||||||||
ISSN: | 0261-4189 | ||||||||||||||||||
Official Date: | 11 December 2023 | ||||||||||||||||||
Dates: |
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Volume: | 42 | ||||||||||||||||||
Number: | 24 | ||||||||||||||||||
Article Number: | e113941 | ||||||||||||||||||
DOI: | 10.15252/embj.2023113941 | ||||||||||||||||||
Status: | Peer Reviewed | ||||||||||||||||||
Publication Status: | Published | ||||||||||||||||||
Access rights to Published version: | Restricted or Subscription Access | ||||||||||||||||||
Copyright Holders: | © 2023 The Authors | ||||||||||||||||||
Date of first compliant deposit: | 13 December 2023 | ||||||||||||||||||
RIOXX Funder/Project Grant: |
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